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3KQX
Biol. Unit 1
Info
Asym.Unit (1.0 MB)
Biol.Unit 1 (519 KB)
Biol.Unit 2 (520 KB)
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(1)
Title
:
STRUCTURE OF A PROTEASE 1
Authors
:
S. Mcgowan, J. C. Whisstock
Date
:
17 Nov 09 (Deposition) - 02 Feb 10 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.01
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D,E,F (1x)
Biol. Unit 2: G,H,I,J,K,L (1x)
Keywords
:
Protease, Aminopeptidase, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Mcgowan, C. A. Oellig, W. A. Birru, T. T. Caradoc-Davies, C. M. Stack J. Lowther, T. Skinner-Adams, A. Mucha, P. Kafarski, J. Grembecka, K. R. Trenholme, A. M. Buckle, D. L. Gardiner, J. P. Dalton, J. C. Whisstock
Structure Of The Plasmodium Falciparum M17 Aminopeptidase And Significance For The Design Of Drugs Targeting The Neutral Exopeptidases
Proc. Natl. Acad. Sci. Usa V. 107 2449 2010
[
close entry info
]
Hetero Components
(4, 44)
Info
All Hetero Components
1a: PENTAETHYLENE GLYCOL (1PEa)
1aa: PENTAETHYLENE GLYCOL (1PEaa)
1ab: PENTAETHYLENE GLYCOL (1PEab)
1ac: PENTAETHYLENE GLYCOL (1PEac)
1ad: PENTAETHYLENE GLYCOL (1PEad)
1ae: PENTAETHYLENE GLYCOL (1PEae)
1af: PENTAETHYLENE GLYCOL (1PEaf)
1ag: PENTAETHYLENE GLYCOL (1PEag)
1ah: PENTAETHYLENE GLYCOL (1PEah)
1ai: PENTAETHYLENE GLYCOL (1PEai)
1aj: PENTAETHYLENE GLYCOL (1PEaj)
1ak: PENTAETHYLENE GLYCOL (1PEak)
1al: PENTAETHYLENE GLYCOL (1PEal)
1am: PENTAETHYLENE GLYCOL (1PEam)
1an: PENTAETHYLENE GLYCOL (1PEan)
1ao: PENTAETHYLENE GLYCOL (1PEao)
1ap: PENTAETHYLENE GLYCOL (1PEap)
1aq: PENTAETHYLENE GLYCOL (1PEaq)
1ar: PENTAETHYLENE GLYCOL (1PEar)
1as: PENTAETHYLENE GLYCOL (1PEas)
1at: PENTAETHYLENE GLYCOL (1PEat)
1au: PENTAETHYLENE GLYCOL (1PEau)
1av: PENTAETHYLENE GLYCOL (1PEav)
1aw: PENTAETHYLENE GLYCOL (1PEaw)
1ax: PENTAETHYLENE GLYCOL (1PEax)
1ay: PENTAETHYLENE GLYCOL (1PEay)
1az: PENTAETHYLENE GLYCOL (1PEaz)
1b: PENTAETHYLENE GLYCOL (1PEb)
1ba: PENTAETHYLENE GLYCOL (1PEba)
1bb: PENTAETHYLENE GLYCOL (1PEbb)
1c: PENTAETHYLENE GLYCOL (1PEc)
1d: PENTAETHYLENE GLYCOL (1PEd)
1e: PENTAETHYLENE GLYCOL (1PEe)
1f: PENTAETHYLENE GLYCOL (1PEf)
1g: PENTAETHYLENE GLYCOL (1PEg)
1h: PENTAETHYLENE GLYCOL (1PEh)
1i: PENTAETHYLENE GLYCOL (1PEi)
1j: PENTAETHYLENE GLYCOL (1PEj)
1k: PENTAETHYLENE GLYCOL (1PEk)
1l: PENTAETHYLENE GLYCOL (1PEl)
1m: PENTAETHYLENE GLYCOL (1PEm)
1n: PENTAETHYLENE GLYCOL (1PEn)
1o: PENTAETHYLENE GLYCOL (1PEo)
1p: PENTAETHYLENE GLYCOL (1PEp)
1q: PENTAETHYLENE GLYCOL (1PEq)
1r: PENTAETHYLENE GLYCOL (1PEr)
1s: PENTAETHYLENE GLYCOL (1PEs)
1t: PENTAETHYLENE GLYCOL (1PEt)
1u: PENTAETHYLENE GLYCOL (1PEu)
1v: PENTAETHYLENE GLYCOL (1PEv)
1w: PENTAETHYLENE GLYCOL (1PEw)
1x: PENTAETHYLENE GLYCOL (1PEx)
1y: PENTAETHYLENE GLYCOL (1PEy)
1z: PENTAETHYLENE GLYCOL (1PEz)
2a: NONAETHYLENE GLYCOL (2PEa)
2b: NONAETHYLENE GLYCOL (2PEb)
2c: NONAETHYLENE GLYCOL (2PEc)
2d: NONAETHYLENE GLYCOL (2PEd)
3a: CARBONATE ION (CO3a)
3b: CARBONATE ION (CO3b)
3c: CARBONATE ION (CO3c)
3d: CARBONATE ION (CO3d)
3e: CARBONATE ION (CO3e)
3f: CARBONATE ION (CO3f)
3g: CARBONATE ION (CO3g)
3h: CARBONATE ION (CO3h)
3i: CARBONATE ION (CO3i)
3j: CARBONATE ION (CO3j)
3k: CARBONATE ION (CO3k)
3l: CARBONATE ION (CO3l)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
4e: SULFATE ION (SO4e)
4f: SULFATE ION (SO4f)
4g: SULFATE ION (SO4g)
4h: SULFATE ION (SO4h)
4i: SULFATE ION (SO4i)
4j: SULFATE ION (SO4j)
4k: SULFATE ION (SO4k)
4l: SULFATE ION (SO4l)
4m: SULFATE ION (SO4m)
4n: SULFATE ION (SO4n)
4o: SULFATE ION (SO4o)
4p: SULFATE ION (SO4p)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
5c: ZINC ION (ZNc)
5d: ZINC ION (ZNd)
5e: ZINC ION (ZNe)
5f: ZINC ION (ZNf)
5g: ZINC ION (ZNg)
5h: ZINC ION (ZNh)
5i: ZINC ION (ZNi)
5j: ZINC ION (ZNj)
5k: ZINC ION (ZNk)
5l: ZINC ION (ZNl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
1PE
24
Ligand/Ion
PENTAETHYLENE GLYCOL
2
2PE
3
Ligand/Ion
NONAETHYLENE GLYCOL
3
CO3
6
Ligand/Ion
CARBONATE ION
4
SO4
11
Ligand/Ion
SULFATE ION
5
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(54, 54)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
49: FC4 (SOFTWARE)
50: FC5 (SOFTWARE)
51: GC3 (SOFTWARE)
52: GC4 (SOFTWARE)
53: GC8 (SOFTWARE)
54: IC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:374 , ASP A:379 , ASP A:399 , GLU A:461 , HOH A:4267 , HOH A:4274
BINDING SITE FOR RESIDUE ZN A 1001
02
AC2
SOFTWARE
LYS A:374 , ALA A:460 , GLU A:461 , GLY A:462 , ARG A:463 , LEU A:487 , HOH A:4267
BINDING SITE FOR RESIDUE CO3 A 1002
03
AC3
SOFTWARE
ILE A:101 , GLU A:102 , TYR A:103 , ASN A:104
BINDING SITE FOR RESIDUE SO4 A 1
04
AC4
SOFTWARE
GLU A:125 , GLY A:126 , LEU A:219 , SER A:220 , HOH A:4029 , LYS G:111
BINDING SITE FOR RESIDUE SO4 A 2
05
AC5
SOFTWARE
TYR A:103 , ASN A:104 , TYR A:411 , HOH A:1912
BINDING SITE FOR RESIDUE 1PE A 19
06
AC6
SOFTWARE
TYR A:103 , GLU A:316 , LYS A:320
BINDING SITE FOR RESIDUE 1PE A 20
07
AC7
SOFTWARE
MET A:392 , GLY A:489 , HOH A:4274
BINDING SITE FOR RESIDUE 1PE A 24
08
AC8
SOFTWARE
ASN A:449 , LYS A:451 , ASP A:543 , HOH A:3368 , SER B:254
BINDING SITE FOR RESIDUE 1PE A 57
09
AC9
SOFTWARE
LYS B:374 , ASP B:379 , ASP B:399 , GLU B:461 , HOH B:4281
BINDING SITE FOR RESIDUE ZN B 1001
10
BC1
SOFTWARE
LYS B:374 , ALA B:460 , GLU B:461 , GLY B:462 , ARG B:463 , LEU B:487
BINDING SITE FOR RESIDUE CO3 B 1002
11
BC2
SOFTWARE
SER A:435 , LYS A:436 , SER B:435 , LYS B:436 , SER C:435 , LYS C:436
BINDING SITE FOR RESIDUE SO4 B 3
12
BC3
SOFTWARE
GLU B:125 , GLY B:126 , LEU B:219 , SER B:220
BINDING SITE FOR RESIDUE SO4 B 12
13
BC4
SOFTWARE
2PE B:14 , TYR B:103 , ASN B:104 , 2PE H:6 , TYR H:103 , ASN H:104 , HIS H:108 , GLU H:282 , HOH H:3089 , HOH H:3267
BINDING SITE FOR RESIDUE 2PE B 13
14
BC5
SOFTWARE
2PE B:13 , TYR B:103 , HIS B:108 , LYS B:320 , TYR B:411 , 2PE H:6 , TYR H:103 , GLU H:316 , GLN H:319 , LYS H:320
BINDING SITE FOR RESIDUE 2PE B 14
15
BC6
SOFTWARE
GLY B:390 , MET B:392 , MET B:396 , PHE B:398 , GLY B:489 , HOH B:4281
BINDING SITE FOR RESIDUE 1PE B 40
16
BC7
SOFTWARE
LYS C:374 , ASP C:379 , ASP C:399 , GLU C:461 , HOH C:4276
BINDING SITE FOR RESIDUE ZN C 1001
17
BC8
SOFTWARE
LYS C:374 , ASP C:459 , ALA C:460 , GLU C:461 , GLY C:462 , ARG C:463 , LEU C:487
BINDING SITE FOR RESIDUE CO3 C 1002
18
BC9
SOFTWARE
ILE C:529 , ILE C:530 , ASN C:531 , GLU C:532 , HOH C:1209 , HOH C:4105 , TYR D:499
BINDING SITE FOR RESIDUE SO4 C 6
19
CC1
SOFTWARE
GLY C:126 , LEU C:219 , SER C:220
BINDING SITE FOR RESIDUE SO4 C 15
20
CC2
SOFTWARE
ASN C:505 , ASN C:506 , ALA C:570 , HOH C:3395 , HOH C:3904
BINDING SITE FOR RESIDUE SO4 C 16
21
CC3
SOFTWARE
TYR C:103 , GLU C:316 , LYS C:320
BINDING SITE FOR RESIDUE 1PE C 17
22
CC4
SOFTWARE
TYR C:103 , ASN C:104 , HIS C:108 , TYR C:411 , HOH C:997
BINDING SITE FOR RESIDUE 1PE C 18
23
CC5
SOFTWARE
GLY C:390 , MET C:392 , ALA C:577 , HOH C:2344 , HOH C:4276
BINDING SITE FOR RESIDUE 1PE C 41
24
CC6
SOFTWARE
LYS D:374 , ASP D:379 , ASP D:399 , GLU D:461 , HOH D:4275
BINDING SITE FOR RESIDUE ZN D 1001
25
CC7
SOFTWARE
LYS D:374 , ALA D:460 , GLU D:461 , GLY D:462 , ARG D:463 , LEU D:487
BINDING SITE FOR RESIDUE CO3 D 1002
26
CC8
SOFTWARE
ILE D:101 , GLU D:102 , TYR D:103 , ASN D:104
BINDING SITE FOR RESIDUE SO4 D 5
27
CC9
SOFTWARE
SER D:435 , LYS D:436 , SER E:435 , LYS E:436 , SER F:435 , LYS F:436
BINDING SITE FOR RESIDUE SO4 D 7
28
DC1
SOFTWARE
ASN D:545 , SER D:549 , HOH D:650 , HOH D:2932 , HOH D:3188 , HOH D:3694 , ARG E:586
BINDING SITE FOR RESIDUE SO4 D 10
29
DC2
SOFTWARE
TYR D:103 , ASN D:104 , HIS D:108 , PHE D:289 , TYR D:411 , HOH D:1759
BINDING SITE FOR RESIDUE 1PE D 9
30
DC3
SOFTWARE
HIS D:108 , ILE D:110 , GLU D:282 , ARG D:285 , HIS L:108 , ILE L:110 , LYS L:111
BINDING SITE FOR RESIDUE 1PE D 612
31
DC4
SOFTWARE
GLY D:390 , MET D:392 , LEU D:487 , GLY D:489 , ALA D:577 , HOH D:4275
BINDING SITE FOR RESIDUE 1PE D 23
32
DC5
SOFTWARE
TYR D:499 , SER D:517 , LYS D:518 , VAL D:524
BINDING SITE FOR RESIDUE 1PE D 34
33
DC6
SOFTWARE
ASN D:449 , LYS D:451 , ARG D:534 , ASP D:543 , GLU D:564 , GLN D:567 , SER E:254
BINDING SITE FOR RESIDUE 1PE D 44
34
DC7
SOFTWARE
PHE A:156 , ASN A:161 , TYR D:176 , MET D:177 , PHE D:178 , SER D:184 , VAL D:185 , HOH D:4357
BINDING SITE FOR RESIDUE 1PE D 62
35
DC8
SOFTWARE
LYS E:374 , ASP E:379 , ASP E:399 , GLU E:461 , HOH E:4271 , HOH E:4272
BINDING SITE FOR RESIDUE ZN E 1001
36
DC9
SOFTWARE
LYS E:374 , ALA E:460 , GLY E:462 , ARG E:463 , LEU E:487 , HOH E:4272
BINDING SITE FOR RESIDUE CO3 E 1002
37
EC1
SOFTWARE
ASN E:505 , ASN E:506 , THR E:569 , ALA E:570
BINDING SITE FOR RESIDUE SO4 E 11
38
EC2
SOFTWARE
GLN E:319 , LYS E:320
BINDING SITE FOR RESIDUE 1PE E 7
39
EC3
SOFTWARE
TYR E:103 , HIS E:108 , PHE E:289 , LYS E:320 , TYR E:411 , HOH E:4239
BINDING SITE FOR RESIDUE 1PE E 8
40
EC4
SOFTWARE
MET E:392 , PHE E:398 , THR E:486 , GLY E:489 , HOH E:2510 , HOH E:4271
BINDING SITE FOR RESIDUE 1PE E 28
41
EC5
SOFTWARE
SER E:517 , LYS E:518 , VAL E:524 , TRP E:525
BINDING SITE FOR RESIDUE 1PE E 35
42
EC6
SOFTWARE
LYS E:451 , ARG E:534 , ASP E:543 , GLU E:564 , SER F:254 , HOH F:1799
BINDING SITE FOR RESIDUE 1PE E 43
43
EC7
SOFTWARE
LEU E:214 , ASN E:217 , GLU E:250 , GLU E:262 , TYR E:263
BINDING SITE FOR RESIDUE 1PE E 46
44
EC8
SOFTWARE
LYS F:374 , ASP F:379 , ASP F:399 , GLU F:461
BINDING SITE FOR RESIDUE ZN F 1001
45
EC9
SOFTWARE
LYS F:374 , ALA F:460 , GLU F:461 , GLY F:462 , ARG F:463 , LEU F:487
BINDING SITE FOR RESIDUE CO3 F 1002
46
FC1
SOFTWARE
TYR F:103 , ASN F:104 , HIS F:108 , LYS F:320 , TYR F:411
BINDING SITE FOR RESIDUE 1PE F 31
47
FC2
SOFTWARE
TYR F:103 , GLU F:316 , LYS F:320
BINDING SITE FOR RESIDUE 1PE F 32
48
FC3
SOFTWARE
SER D:254 , ASN F:449 , LYS F:451 , ASP F:543 , GLN F:567 , HOH F:2592 , HOH F:3563
BINDING SITE FOR RESIDUE 1PE F 33
49
FC4
SOFTWARE
VAL F:524 , HOH F:4301
BINDING SITE FOR RESIDUE 1PE F 53
50
FC5
SOFTWARE
MET F:392 , GLY F:489
BINDING SITE FOR RESIDUE 2PE F 63
51
GC3
SOFTWARE
TYR A:115 , ASN A:122 , GLU A:124 , TYR A:270 , 1PE G:48 , TYR G:115 , ASN G:122 , GLU G:124 , TYR G:270
BINDING SITE FOR RESIDUE 1PE G 47
52
GC4
SOFTWARE
ASN A:122 , 1PE G:47 , ASN G:122
BINDING SITE FOR RESIDUE 1PE G 48
53
GC8
SOFTWARE
2PE B:13 , 2PE B:14 , TYR B:103 , GLU B:316 , LYS B:320 , HOH B:3232 , TYR H:103 , LYS H:320 , LEU H:321
BINDING SITE FOR RESIDUE 2PE H 6
54
IC7
SOFTWARE
HIS F:108 , ASP F:109 , LYS F:111 , ARG F:285 , HIS J:108 , ILE J:110 , LYS J:111 , GLU J:282 , ARG J:285 , HOH J:3642
BINDING SITE FOR RESIDUE 1PE J 49
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
close CATH info
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Pfam Domains
(1, 12)
Info
all PFAM domains
1a: PFAM_Peptidase_M17_3kqxL01 (L:291-598)
1b: PFAM_Peptidase_M17_3kqxL02 (L:291-598)
1c: PFAM_Peptidase_M17_3kqxL03 (L:291-598)
1d: PFAM_Peptidase_M17_3kqxL04 (L:291-598)
1e: PFAM_Peptidase_M17_3kqxL05 (L:291-598)
1f: PFAM_Peptidase_M17_3kqxL06 (L:291-598)
1g: PFAM_Peptidase_M17_3kqxL07 (L:291-598)
1h: PFAM_Peptidase_M17_3kqxL08 (L:291-598)
1i: PFAM_Peptidase_M17_3kqxL09 (L:291-598)
1j: PFAM_Peptidase_M17_3kqxL10 (L:291-598)
1k: PFAM_Peptidase_M17_3kqxL11 (L:291-598)
1l: PFAM_Peptidase_M17_3kqxL12 (L:291-598)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Peptidase_MH
(119)
Family
:
Peptidase_M17
(9)
Plasmodium falciparum (isolate 3D7)
(4)
1a
Peptidase_M17-3kqxL01
L:291-598
1b
Peptidase_M17-3kqxL02
L:291-598
1c
Peptidase_M17-3kqxL03
L:291-598
1d
Peptidase_M17-3kqxL04
L:291-598
1e
Peptidase_M17-3kqxL05
L:291-598
1f
Peptidase_M17-3kqxL06
L:291-598
1g
Peptidase_M17-3kqxL07
L:291-598
1h
Peptidase_M17-3kqxL08
L:291-598
1i
Peptidase_M17-3kqxL09
L:291-598
1j
Peptidase_M17-3kqxL10
L:291-598
1k
Peptidase_M17-3kqxL11
L:291-598
1l
Peptidase_M17-3kqxL12
L:291-598
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain D
Chain E
Chain F
Asymmetric Unit 1
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by Chain (Biol. Unit)
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Miscellaneous
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Example Commands
Example Command
Action
select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
[
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Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
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